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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaccgattttttccttcgaatcattcgtgttctttttttgtgtgttttttcattttcatttgttaatttgcatgaatatctcacttatatcgataatcgtaactcagATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTTACACTTCCACTGGAGTG

Basic information

species Glycine max
transcript GLYMA08G40800.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G40800.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G150616_T01 (Zea mays), 3'ss of exon 1
----gtaaccgatttt----ttccttcgaatcattcgtgttcttt--ttttgtgtgttttttcattttcatttgttaatttgcatgaatatctcacttatatcgataatcgtaactcagATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTTACACTTCCACTGGAGTG
    ||| |||   |     ||||||  || |  | | | || |   |   ||  | |  || ||| || | ||||  ||||| |    ||     ||   ||| |  |       ||||||| |||| |||||| || |||| |||||||||||||||| |||| || ||||| |||| ||| || 
gtgggtatccgtcctaaggattcctttcaagctctggggatcatgggtgcagttcgctggtttattctcttctgttggtttgctt----attgttgttggttcgctttttccg---cagATCTGCTGTACAAGGACTACCAGACTGACCACAAGTTCACCCTCACTACCTACACCTCCAATGGCGTC

upper sequence: GLYMA08G40800.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0026g01650.t01 (Vitis vinifera), 3'ss of exon 1
-----gtaaccgattttttc--cttcgaatcattcgtgttctttttttgtgtgttttttcattttcatttgttaatttgcatgaatatctcacttatatcgataatcgt---aactcagATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTTACACTTCCACTGGAGTG
       | | | || |||   ||| |  |||||| | | |||||||| | |    |||  | ||   ||  | ||    ||||   | |  ||| | |   |  || |   |  ||||||||||| | || |||||| |||| |||||||||||||||  | || |||||||| ||| ||||||| 
gtgattcatctgtttcttttatctttgcttcattcttatgctttttttttttccccttttttcttttcttactcatgaatatgatgttgttgcttttcttcttcttcttgttatttcagATCTTCTCTACAGGGATTACCAGAGTGACCACAAGTTCACTGTTACTACTTACACATCCTCTGGAGTC
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|298176826|gb|HO023299.1|HO023299
EST:     CATGGCGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCG                         ATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
genomic: CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCGgtaaccgatt ... cgtaactcagATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
EST: gi|9986940|gb|BE661048.1|BE661048
EST:     CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCG                         ATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
genomic: CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCGgtaaccgatt ... cgtaactcagATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
EST: gi|298184314|gb|HO029527.1|HO029527
EST:     GACATCGGCAAGAGAGCTCGCG                         ATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
genomic: GACATCGGCAAGAGAGCTCGCGgtaaccgatt ... cgtaactcagATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
EST: gi|6455452|gb|AW186135.1|AW186135
EST:     CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCG                         ATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
genomic: CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCGgtaaccgatt ... cgtaactcagATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
EST: gi|213603299|gb|DB966586.1|DB966586
EST:     CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCG                         ATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
genomic: CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCGgtaaccgatt ... cgtaactcagATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
EST: gi|209717731|gb|BW679736.1|BW679736
EST:     CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCG                         ATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
genomic: CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCGgtaaccgatt ... cgtaactcagATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
EST: gi|7284237|gb|AW596833.1|AW596833
EST:     CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCG                         ATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
genomic: CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCGgtaaccgatt ... cgtaactcagATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
EST: gi|8827074|gb|BE210804.1|BE210804
EST:     CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCG                         ATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
genomic: CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCGgtaaccgatt ... cgtaactcagATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
EST: gi|151398768|gb|EV268639.1|EV268639
EST:     CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCG                         ATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
genomic: CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCGgtaaccgatt ... cgtaactcagATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
EST: gi|151395734|gb|EV265611.1|EV265611
EST:     CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCG                         ATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
genomic: CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCGgtaaccgatt ... cgtaactcagATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
EST: gi|298165729|gb|HO008700.1|HO008700
EST:     CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCG                         ATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT
genomic: CATGGTGAAAGGTCCAGGTCTCTACTCTGACATCGGCAAGAGAGCTCGCGgtaaccgatt ... cgtaactcagATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcatttgttaatttgcatgaatatctcacttatatcgataatcgtaactcagATCTTCTGTTCAAGGATTATCAGAATGACCACAAGTTCACCATCACCACTTACACTTCCACTGGAGTG
                                            tcgtaac  putative branch site (score: 2)
     atttgttaattt  TA-rich tract